This paper describes a hardware implementation method of a Petri Net-based controller. A flexible and systematic implementation method, based on look-up tables, is suggested, which enables to build high speed Petri net-based controllers. The suggested method overcomes the inherent speed limit that arises from the microprocessors by using of matrix-based look-up tables. Based on the matrix framework, this paper suggests various specific data path structures as well as a basic data path structure, accompanied by evolution algorithms, for sub-class Petri nets. A new sub-class Petri net, named Biarced Petri Net, resolves memory explosion problem that usually comes with matrix-based look-up tables. The suggested matrix-based method based on the Biarced Petri net has as good efficiency and expendability as the list-based methods. This paper shows the usefulness of the suggested method, evaluating the size of the look-up tables and introducing an architecture of the signal processing unit of a programmable controller. The suggested implementation method is supported by an automatic design support program.